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QuickBooks Online vs PayJunction Comparison (2026)
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QuickBooks Enterprise
4.5
Xero
4.4
NetSuite
4.2
Good recommendations?
QuickBooks Online
4.3
(8.5K)5
4.8K
4
2.4K
3
724
2
196
1
274
Based on GetApp‘s extensive, proprietary database of in-depth, verified user reviews
PayJunction
4.8
(112)5
88
4
23
3
1
2
0
1
0
Based on GetApp‘s extensive, proprietary database of in-depth, verified user reviews
Overview
QuickBooks Online offers accounting with financial dashboards, invoice creation, online payment acceptance, expenses tracking, payroll & more.
PayJunction is a payment gateway & merchant service which provides mid to large scale enterprises with the tools to process all payment types in store or online
- Platforms supported
- Web-based
- iPhone app
- Android app
- Windows Phone app
- Typical customers
- Freelancers
- Small businesses
- Mid size businesses
- Large enterprises
- Customer support
- Phone
- Online
- Knowledge base
- Video tutorials
- Platforms supported
- Web-based
- iPhone app
- Android app
- Windows Phone app
- Typical customers
- Freelancers
- Small businesses
- Mid size businesses
- Large enterprises
- Customer support
- Phone
- Online
- Knowledge base
- Video tutorials
Video & Screenshots
Pricing
User reviews
4.3
8.5K
5
4
3
2
1
4.8K
2.4K
724
196
274
- Value for money
- Ease of use
- Features
- Customer support
73%
would recommend this app4.8
112
5
4
3
2
1
88
23
1
0
0
- Value for money
- Ease of use
- Features
- Customer support
85%
would recommend this appPros
“I like it’s financial reporting since with it we can get solid library of built in reports plus real time dashboards that makes it easy to track profit,expenses and cashflow without the need of our accountant.”
NB
Nerisha B.
Senior Bookkeeper
“It is a reliable, cloud-based accounting system that handles core functions like invoicing, payments, and bank reconciliation efficiently.”
Jennifer H.
Service Billing Administrator
“QuickBooks Online is the central Financial Reporting and Invoicing program that I use in my Iron Door making company - it has been a great milestone with it.”
CM
Christin M.
Business Owner
Pros
“We balance EVERY night when we close.”
SB
Sue B.
Practice Manager
“The best thing about PayJunction and the main reason we switched is the integration with our veterinary PIMS.”
CS
Carolyn S.
Office Manager
“The best features of PayJunction for me are the seamless intergration with my practice software, the flexibility accepting payments, and the ability to function at remote locations.”
JR
Jennifer R.
Owner, veterinarian
Cons
“Limitations with check printing: can’t customize templates or account info, must buy pre-printed checks, which adds cost, risk of errors, and paper waste.”
VB
Vanessa B.
Bookkeeper
“The pricing for add-ons and the massive jumps in cost between user tiers (e.g., $115 for 5 users vs. $275 for 25) is frustrating for scaling businesses. And honestly, it's super frustrating to know that they have features that I just don't know how to use, and likely need, but the free 'tutorials' are so basic—I feel like it's a terrible customer satisfaction approach to charge for classes to get the complete picture when I've been a subscriber for nearly 10 years.”
Jill R.
Owner
“I've asked about getting some of those reports but customer support says they don't have it. As someone that knows the accounting side of things the product can be frustrating to use because they block certain features or accounting procedures to try and help people not mess up their books.”
BS
Brandy S.
Office Manager
Cons
“It is more expensive than what we were previously paying.”
CS
Carolyn S.
Office Manager
“That is a very long process that I don't believe is unique to this company. ”
NH
Nathan H.
Counseling
- Vendor responds to reviews
- Last review4 days ago
- Vendor responds to reviews
- Last review2 years ago
Key features
- Total features180
- 1099 Preparation
- 401(k) Tracking
- ACH Payment Processing
- API
- Accounting
- Accounts Payable
- Accounts Receivable
- Accrual Accounting
- Activity Dashboard
- Activity Tracking
- Ad hoc Reporting
- Address Validation
- Aging Tracking
- Approval Process Control
- Asset Accounting
- Asset Lifecycle Management
- Asset Tracking
- Attendance Management
- Audit Trail
- Automatic Backup
- Automatic Billing
- Bank Reconciliation
- Benefits Management
- Billable Items Tracking
- Billing & Invoicing
- Billing Portal
- Budgeting/Forecasting
- CRM
- Cash Flow Management
- Cash Management
- Categorization/Grouping
- Chart of Accounts
- Check Printing
- Check Processing
- Check Writing
- Client Management
- Commission Management
- Compliance Management
- Consolidation/Roll-Up
- Consumer Use Tax
- Contact Database
- Contingency Billing
- Core Accounting
- Cost Estimating
- Cost Management
- Credit Card Management
- Credit Card Processing
- Cross Ledger Posting
- Customer Accounts
- Customer History
- Customer Statements
- Customizable Branding
- Customizable Fields
- Customizable Forms
- Customizable Invoices
- Customizable Reports
- Customizable Templates
- Dashboard
- Data Extraction
- Data Import/Export
- Data Visualization
- Debit/Credit Card Processing
- Direct Deposit
- Discount Management
- Document Templates
- Donation Management
- Donation Tracking
- Donor Management
- Drag & Drop
- Dunning Management
- Duplicate Payment Alert
- Electronic Funds Transfer
- Electronic Payments
- Electronic Signature
- Email Management
- Employee Management
- Estimating
- Exemption Management
- Expense Claims
- Expense Management
- Expense Tracking
- Fee Calculation & Posting
- Financial Aid Management
- Financial Analysis
- Financial Management
- Financial Reporting
- Fixed Asset Management
- For AEC Industry
- For Higher Education
- For Medical Purposes
- For Nonprofits
- For Real Estate
- For Religious Organizations
- For Small Businesses
- For Trucking Industry
- Forecasting
- Fraud Detection
- Fund Accounting
- Fund Management
- General Ledger
- Grant Management
- Hourly Billing
- In-Person Payments
- Income & Balance Sheet
- Inventory Management
- Inventory Tracking
- Invoice Creation
- Invoice History
- Invoice Management
- Invoice Processing
- Job Costing
- Job Tracking
- K-12
- Mileage Tracking
- Mobile Access
- Mobile App
- Mobile Payments
- Mobile Receipt Upload
- Multi-Company
- Multi-Country
- Multi-Currency
- Multi-Department/Project
- Multi-Location
- Multi-Period Recurring Billing
- Multi-State
- Online Banking
- Online Invoicing
- Online Payments
- Order Management
- Overpayment Processing
- PCI Compliance
- Partial Payments
- Partnership Accounting
- Payment Collection
- Payment Gateway Integration
- Payment Links
- Payment Processing
- Payment Reconciliation
- Payment Tracking
- Payroll Management
- Payroll Outsourcing
- Payroll Reporting
- Point of Sale (POS)
- Profit/Loss Statement
- Progress Reports
- Project Accounting
- Project Billing
- Project Management
- Projections
- Purchase Order Management
- Purchase Order Reconciliation
- Purchasing & Receiving
- QuickBooks Integration
- Quotes/Estimates
- Real-Time Data
- Real-Time Reporting
- Real-Time Updates
- Receipt Management
- Receivables Ledger
- Recurring Invoicing
- Recurring Payments
- Recurring/Subscription Billing
- Reimbursement Management
- Reminders
- Remote Access/Control
- Reporting & Statistics
- Reporting/Analytics
- Revenue Recognition
- SSL Security
- Sales Reports
- Sales Tax Management
- Scheduling
- Search/Filter
- Self Service Portal
- Self-Service Reporting
- Spend Management
- Status Tracking
- Strategic Planning
- Tax Calculation
- Tax Compliance
- Tax Filing
- Tax Forms
- Tax Management
- Taxability Verification
- Third-Party Integrations
- Time & Expense Tracking
- Time Tracking
- Transaction History
- Transaction Monitoring
- Transaction Tracking
- Total features31
- 1099 Preparation
- 401(k) Tracking
- ACH Payment Processing
- API
- Accounting
- Accounts Payable
- Accounts Receivable
- Accrual Accounting
- Activity Dashboard
- Activity Tracking
- Ad hoc Reporting
- Address Validation
- Aging Tracking
- Approval Process Control
- Asset Accounting
- Asset Lifecycle Management
- Asset Tracking
- Attendance Management
- Audit Trail
- Automatic Backup
- Automatic Billing
- Bank Reconciliation
- Benefits Management
- Billable Items Tracking
- Billing & Invoicing
- Billing Portal
- Budgeting/Forecasting
- CRM
- Cash Flow Management
- Cash Management
- Categorization/Grouping
- Chart of Accounts
- Check Printing
- Check Processing
- Check Writing
- Client Management
- Commission Management
- Compliance Management
- Consolidation/Roll-Up
- Consumer Use Tax
- Contact Database
- Contingency Billing
- Core Accounting
- Cost Estimating
- Cost Management
- Credit Card Management
- Credit Card Processing
- Cross Ledger Posting
- Customer Accounts
- Customer History
- Customer Statements
- Customizable Branding
- Customizable Fields
- Customizable Forms
- Customizable Invoices
- Customizable Reports
- Customizable Templates
- Dashboard
- Data Extraction
- Data Import/Export
- Data Visualization
- Debit/Credit Card Processing
- Direct Deposit
- Discount Management
- Document Templates
- Donation Management
- Donation Tracking
- Donor Management
- Drag & Drop
- Dunning Management
- Duplicate Payment Alert
- Electronic Funds Transfer
- Electronic Payments
- Electronic Signature
- Email Management
- Employee Management
- Estimating
- Exemption Management
- Expense Claims
- Expense Management
- Expense Tracking
- Fee Calculation & Posting
- Financial Aid Management
- Financial Analysis
- Financial Management
- Financial Reporting
- Fixed Asset Management
- For AEC Industry
- For Higher Education
- For Medical Purposes
- For Nonprofits
- For Real Estate
- For Religious Organizations
- For Small Businesses
- For Trucking Industry
- Forecasting
- Fraud Detection
- Fund Accounting
- Fund Management
- General Ledger
- Grant Management
- Hourly Billing
- In-Person Payments
- Income & Balance Sheet
- Inventory Management
- Inventory Tracking
- Invoice Creation
- Invoice History
- Invoice Management
- Invoice Processing
- Job Costing
- Job Tracking
- K-12
- Mileage Tracking
- Mobile Access
- Mobile App
- Mobile Payments
- Mobile Receipt Upload
- Multi-Company
- Multi-Country
- Multi-Currency
- Multi-Department/Project
- Multi-Location
- Multi-Period Recurring Billing
- Multi-State
- Online Banking
- Online Invoicing
- Online Payments
- Order Management
- Overpayment Processing
- PCI Compliance
- Partial Payments
- Partnership Accounting
- Payment Collection
- Payment Gateway Integration
- Payment Links
- Payment Processing
- Payment Reconciliation
- Payment Tracking
- Payroll Management
- Payroll Outsourcing
- Payroll Reporting
- Point of Sale (POS)
- Profit/Loss Statement
- Progress Reports
- Project Accounting
- Project Billing
- Project Management
- Projections
- Purchase Order Management
- Purchase Order Reconciliation
- Purchasing & Receiving
- QuickBooks Integration
- Quotes/Estimates
- Real-Time Data
- Real-Time Reporting
- Real-Time Updates
- Receipt Management
- Receivables Ledger
- Recurring Invoicing
- Recurring Payments
- Recurring/Subscription Billing
- Reimbursement Management
- Reminders
- Remote Access/Control
- Reporting & Statistics
- Reporting/Analytics
- Revenue Recognition
- SSL Security
- Sales Reports
- Sales Tax Management
- Scheduling
- Search/Filter
- Self Service Portal
- Self-Service Reporting
- Spend Management
- Status Tracking
- Strategic Planning
- Tax Calculation
- Tax Compliance
- Tax Filing
- Tax Forms
- Tax Management
- Taxability Verification
- Third-Party Integrations
- Time & Expense Tracking
- Time Tracking
- Transaction History
- Transaction Monitoring
- Transaction Tracking
Integrations
- Total integrations129
- Accelo
- Acuity Scheduling
- Adobe Commerce
- ApprovalMax
- AutoEntry
- Avalara
- BILL Accounts Payable & Receivable
- BILL Spend & Expense
- BQE CORE Suite
- BigCommerce
- BigTime
- BigTime Enterprise PSA
- Birdeye
- BlueFolder
- Bolt
- Buddy Punch
- Buildertrend
- Celoxis
- ChargeOver
- Checkfront
- Chrometa
- Cin7 Core
- Cin7 Omni
- Clio
- ClockShark
- Constant Contact
- Contractor Foreman
- ConvergeHub
- CreditorWatch Collect
- Datamolino
- Deputy
- Descartes ShipRush
- Dext
- Dryrun
- EZRentOut
- Emburse Nexonia
- Entryless
- Erplain
- Expensify
- Fathom
- Field Promax
- Float Cash Flow
- Freckle
- Freshdesk
- Function Point
- Gusto
- HandiFox
- Harvest
- Hike
- Housecall Pro
- Hubdoc
- Ignition
- Insightly Marketing
- InvoiceSherpa
- Jobber
- Kantata
- Karbon
- Kickserv
- Knowify
- LeanLaw
- LivePlan
- MRPeasy
- Melio
- Method CRM
- MicroBiz Cloud POS
- Microsoft Excel
- Microsoft Power BI
- MinuteDock
- Neat
- Neon CRM
- Netskope One Platform
- Now Commerce
- OfficeBooks
- OnTheClock
- PayPal
- Pepperi
- Pinnacle Cart
- Pipeline CRM
- Planyo
- Plooto
- QR Inventory
- Quadient Accounts Payable
- Quadient Accounts Receivable
- QuickBooks Time
- Quickbase
- Quotient
- Qvinci
- RUN Powered by ADP
- RazorSync
- Repsly
- Rerun
- Rydoo
- SAP Concur
- Sage AR Automation
- SellerActive
- ServiceM8
- ServiceTitan
- ServiceTrade
- Share a Refund
- SherpaDesk
- Shift4Shop
- Shoeboxed
- Shopify
- Simpro
- Skyvia
- Spotlight Reporting
- Square Point of Sale
- Stitch Labs
- Stripe
- Sumac
- SurePayroll
- Sycamore School
- Tallie
- Time Tracker by eBillity
- Timely
- TurboTax Business
- Unleashed
- VeriClock
- WORKetc
- Wagepoint
- Webgility
- When I Work
- WooCommerce
- Workiz
- Zapier
- Zoho Analytics
- Zoho Creator
- Zoho Expense
- iBE.net
- mHelpDesk
- noCRM
- vcita
- Total integrations4
- Accelo
- Acuity Scheduling
- Adobe Commerce
- ApprovalMax
- AutoEntry
- Avalara
- BILL Accounts Payable & Receivable
- BILL Spend & Expense
- BQE CORE Suite
- BigCommerce
- BigTime
- BigTime Enterprise PSA
- Birdeye
- BlueFolder
- Bolt
- Buddy Punch
- Buildertrend
- Celoxis
- ChargeOver
- Checkfront
- Chrometa
- Cin7 Core
- Cin7 Omni
- Clio
- ClockShark
- Constant Contact
- Contractor Foreman
- ConvergeHub
- CreditorWatch Collect
- Datamolino
- Deputy
- Descartes ShipRush
- Dext
- Dryrun
- EZRentOut
- Emburse Nexonia
- Entryless
- Erplain
- Expensify
- Fathom
- Field Promax
- Float Cash Flow
- Freckle
- Freshdesk
- Function Point
- Gusto
- HandiFox
- Harvest
- Hike
- Housecall Pro
- Hubdoc
- Ignition
- Insightly Marketing
- InvoiceSherpa
- Jobber
- Kantata
- Karbon
- Kickserv
- Knowify
- LeanLaw
- LivePlan
- MRPeasy
- Melio
- Method CRM
- MicroBiz Cloud POS
- Microsoft Excel
- Microsoft Power BI
- MinuteDock
- Neat
- Neon CRM
- Netskope One Platform
- Now Commerce
- OfficeBooks
- OnTheClock
- PayPal
- Pepperi
- Pinnacle Cart
- Pipeline CRM
- Planyo
- Plooto
- QR Inventory
- Quadient Accounts Payable
- Quadient Accounts Receivable
- QuickBooks Time
- Quickbase
- Quotient
- Qvinci
- RUN Powered by ADP
- RazorSync
- Repsly
- Rerun
- Rydoo
- SAP Concur
- Sage AR Automation
- SellerActive
- ServiceM8
- ServiceTitan
- ServiceTrade
- Share a Refund
- SherpaDesk
- Shift4Shop
- Shoeboxed
- Shopify
- Simpro
- Skyvia
- Spotlight Reporting
- Square Point of Sale
- Stitch Labs
- Stripe
- Sumac
- SurePayroll
- Sycamore School
- Tallie
- Time Tracker by eBillity
- Timely
- TurboTax Business
- Unleashed
- VeriClock
- WORKetc
- Wagepoint
- Webgility
- When I Work
- WooCommerce
- Workiz
- Zapier
- Zoho Analytics
- Zoho Creator
- Zoho Expense
- iBE.net
- mHelpDesk
- noCRM
- vcita
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